A pipeline that incorporates an ensemble of computational tools to predict motifs de novo from ChIP-sequencing (ChIP-seq) data. Similar redundant motifs are compared using the weighted information content (WIC) similarity score and clustered using an iterative procedure. A comprehensive output report is generated with several different evaluation metrics to compare and evaluate the results.

Type:

Desktop

GimmeMotifs specifications

Unique identifier:

OMICS_02150

Interface:

Command line interface

Input format:

BED, FASTA

Operating system:

Unix/Linux

License:

MIT License

Stability:

Stable

Software type:

Pipeline/Workflow

Restrictions to use:

None

Biological technology:

Illumina, Life Technologies, Pacific Biosciences, Roche

Programming languages:

Python

Computer skills:

Advanced

Maintained:

Yes

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Institution(s)

Funding source(s)

NWO-ALW (Netherlands Organization for Scientific Research-Research Council for Earth and Life Sciences, grant number 864.03.002); National Institutes of Health (grant number R01HD054356) with grants to G.J.C.V.